Large scale single nucleotide polymorphism discovery in unsequenced genomes using second generation high throughput sequencing technology: applied to turkey

Table 3 Quality estimation of turkey short read contigs based on alignment to the chicken genome.

	frequency¹		percentage mapping to chicken²
size	contigs	BES	uniquely		with secondary hit		multiple hits		total
50-70	124480	0	47	-	2	-	1	-	50	-
75-100	38382	1	53	0	2	0	1	0	56	0
100-150	25808	156	73	69	1	4	0	4	74	77
150-200	8878	226	69	78	1	6	0	4	70	88
200-300	6453	835	63	82	1	3	0	3	64	88
300-400	2372	2428	51	86	1	4	0	1	52	90
400-500	1192	6664	40	87	1	3	0	2	40	92
500-600	682	8509	30	88	1	3	0	2	31	93
600-800	688	1510	18	88	0	4	0	2	18	93
800-1000	308	54	11	83	0	0	0	2	11	85
>= 1000	380	4	6	80	1	0	0	20	7	100

¹ frequency in which contigs and BES (in italics) occurred per size category
² per size category percentage of contigs and BES (in italics) that mapped to the chicken genome

ISSN: 1471-2164